NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters
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Scaffold Ga0209380_10127596

Scaffold Ga0209380_10127596


Overview

Basic Information
Taxon OID3300027889 Open in IMG/M
Scaffold IDGa0209380_10127596 Open in IMG/M
Source Dataset NameWarmed and freeze-thawed soil microbial communities from the Hubbard Brook experimental Forest, New Hampshire - Hubbard Brook CCASE Soil Metagenome WFT 6 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1481
Total Scaffold Genes5 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (60.00%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (50.00%)
Associated Families1

Taxonomy
Not Available(Source: )

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Loam → Forest Soil → Soil → Soil Microbial Communities From The Hubbard Brook Experimental Forest, New Hampshire, Under Manipulated Climate Change Conditions.

Source Dataset Sampling Location
Location NameUSA: New Hampshire, Hubbard Brook experimental Forest
CoordinatesLat. (o)Long. (o)Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F014638Metagenome / Metatranscriptome261Y

Sequences

Protein IDFamilyRBSSequence
Ga0209380_101275961F014638AGGVGDAVKTAGGGTAVPLKGIDKLGFDAFDVTVTVPGNDPADVGAKVTVNVVLCPGVNVTGDVIPEMLNPVPDAPTAEIVALAPPVFL
Ga0209380_101275962F014638AGGVGDAVKVAAPTAVPLSGIDKLGFDAFEVTVTVPGKVPADVGANFTVNVALCPGVNVTGGVIPEMLNPVPVAATAEIVALVPPVLVSVSV
Ga0209380_101275964F014638N/AVYVKLDGDAVKVAAPTAVPLSGIDKLGFDAFEVTVTVPGNVPADVGANFTVNVVLCRGVNVTGGVIPETVNPAPDSPTAEIVALVPPVFWIVSV
Ga0209380_101275965F014638N/AGTAVPLKGIDKLGFDAFDVTVTVPGKVPADVGANFTVNVALCPAVNVTGDVIPEMLNPVPDAPTAEIVALVPPVLVSVSV
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